--- doc/loncapafiles/loncapafiles.lpml	2002/07/25 14:58:07	1.146
+++ doc/loncapafiles/loncapafiles.lpml	2002/08/02 20:08:57	1.155
@@ -3,7 +3,7 @@
 <!-- loncapafiles.lpml -->
 <!-- Scott Harrison -->
 
-<!-- $Id: loncapafiles.lpml,v 1.146 2002/07/25 14:58:07 matthew Exp $ -->
+<!-- $Id: loncapafiles.lpml,v 1.155 2002/08/02 20:08:57 harris41 Exp $ -->
 
 <!--
 
@@ -226,11 +226,6 @@ echo '**********************************
   <description>standard linux directory for configuration files</description>
 </directory>
 <directory dist='default'>
-  <targetdir dist='default'>etc/atalk</targetdir>
-  <categoryname>standard</categoryname>
-  <description>appletalk configuration files</description>
-</directory>
-<directory dist='default'>
   <targetdir dist='default'>etc/cron.d</targetdir>
   <categoryname>standard</categoryname>
   <description>standard linux directory for running time-based "jobs"
@@ -253,12 +248,6 @@ echo '**********************************
   </description>
 </directory>
 <directory dist='default'>
-  <targetdir dist='redhat7 redhat7.1'>etc/samba</targetdir>
-  <categoryname>standard</categoryname>
-  <description>configuration directory for samba authentication
-  </description>
-</directory>
-<directory dist='default'>
   <targetdir dist='default'>etc/rc.d/init.d</targetdir>
   <targetdir dist='debian'>etc/init.d</targetdir>
   <categoryname>standard</categoryname>
@@ -348,6 +337,12 @@ Used by lond parent to check if children
   </description>
 </directory>
 <directory dist='default'>
+  <targetdir dist='default'>home/httpd/lib</targetdir>
+  <categoryname>server readonly</categoryname>
+  <description>location of LON-CAPA software modules and
+extensions</description>
+</directory>
+<directory dist='default'>
   <targetdir dist='default'>home/httpd/lib/perl</targetdir>
   <categoryname>server readonly</categoryname>
   <description>location of LON-CAPA non web mod-perl handlers</description>
@@ -400,6 +395,11 @@ Used by lond parent to check if children
   <description>root of resource tree</description>
 </directory>
 <directory dist='default'>
+  <targetdir dist='default'>home/httpd/html/userfiles</targetdir>
+  <categoryname>server standard</categoryname>
+  <description>root for user uploaded files</description>
+</directory>
+<directory dist='default'>
   <targetdir dist='default'>home/httpd/html/adm</targetdir>
   <categoryname>server readonly</categoryname>
   <description>unauthenticated resources</description>
@@ -538,9 +538,20 @@ are viewable over the world-wide web</de
   </description>
 </directory>
 <directory dist='default'>
-  <targetdir dist='default'>usr/local/bin</targetdir>
+  <targetdir dist='default'>usr/local/loncapa/bin</targetdir>
   <categoryname>standard</categoryname>
-  <description>local binary files</description>
+  <description>local binary files for loncapa</description>
+</directory>
+<directory dist='default'>
+  <targetdir dist='default'>usr/local/loncapa/doc</targetdir>
+  <categoryname>standard</categoryname>
+  <description>local documentation files for loncapa</description>
+</directory>
+<directory dist='default'>
+  <targetdir dist='default'>usr/local/loncapa/doc/conf_examples</targetdir>
+  <categoryname>standard</categoryname>
+  <description>examples of configuration files for secondary
+ services</description>
 </directory>
 <directory dist='default'>
   <targetdir dist='default'>usr/local/man/man1</targetdir>
@@ -935,8 +946,7 @@ Basic auth password to access /lon-statu
 </file>
 <file>
 <source>loncom/smb.conf</source>
-<target dist='default'>etc/smb.conf</target>
-<target dist='redhat7 redhat7.1'>etc/samba/smb.conf</target>
+<target dist='default'>usr/local/loncapa/doc/conf_examples/smb.conf</target>
 <categoryname>conf</categoryname>
 <description>
 configuration file to make LON-CAPA server file space accessible to network
@@ -970,6 +980,14 @@ Batch script for updating SQL metadata d
 </description>
 </file>
 <file>
+<source>loncom/metadata_database/cleanup_database.pl</source>
+<target dist='default'>home/httpd/perl/cleanup_database.pl</target>
+<categoryname>script</categoryname>
+<description>
+Batch script for removing temporary tables from the SQL metadata database.
+</description>
+</file>
+<file>
 <source>loncom/lonc</source>
 <target dist='default'>home/httpd/perl/lonc</target>
 <categoryname>script</categoryname>
@@ -1337,39 +1355,44 @@ home/httpd/html/adm/help/gif/</targetdir
 Gif files for the help system
 </description>
 <filenames>
-authorRemote.gif;
-constructionSpace.gif;
-constructionSpaceForPublishing.gif;
-creatingANewCourse.gif;
-creatingNewProblemResource.gif;
-formulaResponse.gif;
-login.gif;
-mapAdvancedEditorNew.gif;
-mapClickedStart.gif;
-mapEditFirstClick.gif;
-mapEditInitial.gif;
-mapEditingButton.gif;
-mapEditorDirectoryBrowser.gif;
-mapEditorResourceChosen.gif;
-mapEditorSelection.gif;
-mapInsertResource.gif;
-mapNewResource.gif;
-mapSecondWindowSecondResource.gif;
-mapSimpleEditor.gif;
-mapStraightened.gif;
-mapTwoResources.gif;
-numericalResponse1.gif;
-numericalResponseEditor.gif;
-numericalResponseSlopeProblem.gif;
-numericalResponseVarInText.gif;
-optionResponseEditing.gif;
-optionResponseProblem.gif;
-publishMetadata.gif;
-radioResponse2.gif;
-radioResponseHint.gif;
-smallHelp.gif;
-stringResponseEditor.gif;
-studentInterface.gif;
+authorRemote.gif
+constructionSpace.gif
+constructionSpaceForPublishing.gif
+creatingANewCourse.gif
+creatingNewProblemResource.gif
+dynamic_piecewise.gif
+dynamic_piecewise2.gif
+dynamic_plot.gif
+dynamic_plot2.gif
+formulaResponse.gif
+login.gif
+mapAdvancedEditorNew.gif
+mapClickedStart.gif
+mapEditFirstClick.gif
+mapEditInitial.gif
+mapEditingButton.gif
+mapEditorDirectoryBrowser.gif
+mapEditorResourceChosen.gif
+mapEditorSelection.gif
+mapInsertResource.gif
+mapNewResource.gif
+mapSecondWindowSecondResource.gif
+mapSimpleEditor.gif
+mapStraightened.gif
+mapTwoResources.gif
+numericalResponse1.gif
+numericalResponseEditor.gif
+numericalResponseSlopeProblem.gif
+numericalResponseVarInText.gif
+optionResponseEditing.gif
+optionResponseProblem.gif
+publishMetadata.gif
+radioResponse2.gif
+radioResponseHint.gif
+smallHelp.gif
+spreadsheet_hierarchy.gif
+stringResponseEditor.gif
+studentInterface.gif
 </filenames>
 </fileglob>
 <fileglob>
@@ -1382,39 +1405,44 @@ home/httpd/html/adm/help/eps/</targetdir
 EPS files for the help system
 </description>
 <filenames>
-authorRemote.eps;
-constructionSpace.eps;
-constructionSpaceForPublishing.eps;
-creatingANewCourse.eps;
-creatingNewProblemResource.eps;
-formulaResponse.eps;
-login.eps;
-mapAdvancedEditorNew.eps;
-mapClickedStart.eps;
-mapEditFirstClick.eps;
-mapEditInitial.eps;
-mapEditingButton.eps;
-mapEditorDirectoryBrowser.eps;
-mapEditorResourceChosen.eps;
-mapEditorSelection.eps;
-mapInsertResource.eps;
-mapNewResource.eps;
-mapSecondWindowSecondResource.eps;
-mapSimpleEditor.eps;
-mapStraightened.eps;
-mapTwoResources.eps;
-numericalResponse1.eps;
-numericalResponseEditor.eps;
-numericalResponseSlopeProblem.eps;
-numericalResponseVarInText.eps;
-optionResponseEditing.eps;
-optionResponseProblem.eps;
-publishMetadata.eps;
-radioResponse2.eps;
-radioResponseHint.eps;
-smallHelp.eps;
-stringResponseEditor.eps;
-studentInterface.eps;
+authorRemote.eps
+constructionSpace.eps
+constructionSpaceForPublishing.eps
+creatingANewCourse.eps
+creatingNewProblemResource.eps
+dynamic_piecewise.eps
+dynamic_piecewise2.eps
+dynamic_plot.eps
+dynamic_plot2.eps
+formulaResponse.eps
+login.eps
+mapAdvancedEditorNew.eps
+mapClickedStart.eps
+mapEditFirstClick.eps
+mapEditInitial.eps
+mapEditingButton.eps
+mapEditorDirectoryBrowser.eps
+mapEditorResourceChosen.eps
+mapEditorSelection.eps
+mapInsertResource.eps
+mapNewResource.eps
+mapSecondWindowSecondResource.eps
+mapSimpleEditor.eps
+mapStraightened.eps
+mapTwoResources.eps
+numericalResponse1.eps
+numericalResponseEditor.eps
+numericalResponseSlopeProblem.eps
+numericalResponseVarInText.eps
+optionResponseEditing.eps
+optionResponseProblem.eps
+publishMetadata.eps
+radioResponse2.eps
+radioResponseHint.eps
+smallHelp.eps
+spreadsheet_hierarchy.eps
+stringResponseEditor.eps
+studentInterface.eps
 </filenames>
 </fileglob>
 <fileglob>
@@ -1427,72 +1455,124 @@ home/httpd/html/adm/help/tex/</targetdir
 Tex files for the help system
 </description>
 <filenames>
-About_Authors_Manual.tex;
-About_Numerical_and_Formula_Response.tex;
-Author_LON-CAPA_Introduction.tex;
-Author_Manual_Title_Page.tex;
-Author_Numerical_and_Formula.tex;
-Author_Remote_Control.tex;
-Calling_Functions.tex;
-Construction_Space_Overview.tex;
-Creating_A_Course_Intro.tex;
-Creating_New_Content_Pages.tex;
-Creating_Online_Problems.tex;
-Creating_Radio_Response_Problems.tex;
-Foils.tex;
-Formula_Response_Example.tex;
-Formula_Response_Limitations.tex;
-Formula_Response_Problems.tex;
-Formula_Response_Sampling.tex;
-Formula_Tolerance.tex;
-How_To_Edit_Existing_Content_Pages.tex;
-Latex_Footer.tex;
-Latex_Header.tex;
-Login_To_LON-CAPA.tex;
-Metadata_Description.tex;
-Numerical_Response_Advanced_Example.tex;
-Numerical_Response_Format.tex;
-Numerical_Response_Intro.tex;
-Numerical_Response_Introduction.tex;
-Numerical_Response_Parts_A.tex;
-Numerical_Response_Parts_B.tex;
-Numerical_Response_Problems.tex;
-Numerical_Response_Randomization.tex;
-Numerical_Response_Simple_Example.tex;
-Numerical_Response_Tutorial_A.tex;
-Numerical_Response_Units.tex;
-Option_Response_Concept_Group_Example.tex;
-Option_Response_Matching_Example.tex;
-Option_Response_Problem_Creation.tex;
-Option_Response_Problem_Figure.tex;
-Option_Response_Problem_Parts.tex;
-Option_Response_Problems.tex;
-Option_Response_Simple.tex;
-Problem_Editor_Testing_Area.tex;
-Problem_Types.tex;
-Publishing_A_Resource.tex;
-Publishing_Author_Tutorial_Segue.tex;
-Publishing_Intro.tex;
-Radio_Response_Problems.tex;
-Radio_Response_Randomization.tex;
-Resource_Types.tex;
-Script_Tutorial_Intro.tex;
-Scripting_Help.tex;
-Sequence_Advanced_Editor_Creation.tex;
-Sequence_Definition.tex;
-Sequence_Editor_Selection.tex;
-Sequence_Page_Maps.tex;
-Sequence_Simple_Editor_Creation.tex;
-Sequence_Top-Level.tex;
-Significant_Figures.tex;
-String_Response_Problem_Creation.tex;
-String_Response_Problems.tex;
-Tolerance.tex;
-Variable_Naming_Conventions.tex;
-Variable_Tutorial_A.tex;
-Variables_in_Scripts.tex;
-Variables_in_the_Answer_Block.tex;
-Variables_in_the_Text_Block.tex;
+About_Authors_Manual.tex
+About_Numerical_and_Formula_Response.tex
+Ambiguous_Reference.tex
+Author_LON-CAPA_Introduction.tex
+Author_Manual_Title_Page.tex
+Author_Numerical_and_Formula.tex
+Author_Remote_Control.tex
+Authoring_Adding_Pictures.tex
+Authoring_Dynamic_Plot.tex
+Authoring_HTML_vs_Tex.tex
+Authoring_M_Tag.tex
+Authoring_Piecewise_Plot.tex
+Calling_Functions.tex
+Coauthor.tex
+Construction_Space_Overview.tex
+Course_Add_Student.tex
+Course_Chart_To_Excel.tex
+Course_Convert_To_CSV.tex
+Course_Create_Class_List.tex
+Course_Critical_Message.tex
+Course_Deleting.tex
+Course_Disable_Discussion.tex
+Course_Discussion_Board.tex
+Course_Drop_Student.tex
+Course_Edit_Content.tex
+Course_Feedback_Addresses.tex
+Course_Homework_Performance_Overview.tex
+Course_Message_Access.tex
+Course_Problem_Weight.tex
+Course_Setting_Parameters.tex
+Course_Student_Grade_Override.tex
+Course_Student_Work.tex
+Course_Toplevel_Seq.tex
+Creating_A_Course_Intro.tex
+Creating_New_Content_Pages.tex
+Creating_Online_Problems.tex
+Creating_Radio_Response_Problems.tex
+Foils.tex
+Formula_Response_Example.tex
+Formula_Response_Limitations.tex
+Formula_Response_Problems.tex
+Formula_Response_Sampling.tex
+Formula_Tolerance.tex
+How_To_Edit_Existing_Content_Pages.tex
+Latex_Footer.tex
+Latex_Header.tex
+Login_To_LON-CAPA.tex
+Metadata_Description.tex
+Numerical_Response_Advanced_Example.tex
+Numerical_Response_Format.tex
+Numerical_Response_Intro.tex
+Numerical_Response_Introduction.tex
+Numerical_Response_Parts_A.tex
+Numerical_Response_Parts_B.tex
+Numerical_Response_Problems.tex
+Numerical_Response_Randomization.tex
+Numerical_Response_Simple_Example.tex
+Numerical_Response_Tutorial_A.tex
+Numerical_Response_Units.tex
+Option_Response_Concept_Group_Example.tex
+Option_Response_Matching_Example.tex
+Option_Response_Problem_Creation.tex
+Option_Response_Problem_Figure.tex
+Option_Response_Problem_Parts.tex
+Option_Response_Problems.tex
+Option_Response_Simple.tex
+Problem_Editor_Testing_Area.tex
+Problem_Editor_XML_Index.tex
+Problem_Types.tex
+Publishing_A_Resource.tex
+Publishing_Author_Tutorial_Segue.tex
+Publishing_Copyright.tex
+Publishing_Intro.tex
+Publishing_Keywords.tex
+Radio_Response_Problems.tex
+Radio_Response_Randomization.tex
+Resource_Types.tex
+Script_Tutorial_Intro.tex
+Scripting_Help.tex
+Sequence_Advanced_Editor_Creation.tex
+Sequence_Definition.tex
+Sequence_Editor_Selection.tex
+Sequence_Page_Maps.tex
+Sequence_Simple_Editor_Creation.tex
+Sequence_Top-Level.tex
+Significant_Figures.tex
+Spreadsheet_About.tex
+Spreadsheet_Alternative_View.tex
+Spreadsheet_Changes_To_Grading.tex
+Spreadsheet_Col_Sum.tex
+Spreadsheet_Completely_Recalc.tex
+Spreadsheet_Empty_Rows.tex
+Spreadsheet_Export_Row.tex
+Spreadsheet_Functions.tex
+Spreadsheet_Import_Values.tex
+Spreadsheet_Levels.tex
+Spreadsheet_Lists.tex
+Spreadsheet_Manual_Title_Page.tex
+Spreadsheet_Max_Depth_Exceeded.tex
+Spreadsheet_OOO_Rows.tex
+Spreadsheet_Op_On_All_Problem_Parts.tex
+Spreadsheet_Parms.tex
+Spreadsheet_Problem_Weight.tex
+Spreadsheet_Ranges.tex
+Spreadsheet_Specifying_Cells.tex
+Spreadsheet_Student_Visible.tex
+Spreadsheet_Symbolic_Names.tex
+Spreadsheet_Template_Row.tex
+Spreadsheet_Ternary_Operator.tex
+Spreadsheet_Tries.tex
+String_Response_Problem_Creation.tex
+String_Response_Problems.tex
+Tolerance.tex
+Variable_Naming_Conventions.tex
+Variable_Tutorial_A.tex
+Variables_in_Scripts.tex
+Variables_in_the_Answer_Block.tex
+Variables_in_the_Text_Block.tex
 </filenames>
 </fileglob>
 <file>
@@ -1787,14 +1867,6 @@ them roles.
 <status>works/unverified</status>
 </file>
 <file>
-<source>loncom/interface/lonchart.pm</source>
-<target dist='default'>home/httpd/lib/perl/Apache/lonchart.pm</target>
-<categoryname>handler</categoryname>
-<description>
-Produces simple LectureOnline-like student assessment performance chart
-</description>
-</file>
-<file>
 <source>loncom/interface/lonhtmlcommon.pm</source>
 <target dist='default'>home/httpd/lib/perl/Apache/lonhtmlcommon.pm</target>
 <categoryname>handler</categoryname>
@@ -1988,6 +2060,15 @@ Handles a searchable catalogue.
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/interface/lonmysql.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonmysql.pm</target>
+<categoryname>handler</categoryname>
+<description>
+Provides utility functions for creating and accessing mysql database tables.
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>doc/man/Apache__lonsearchcat.3</source>
 <target dist='default'>usr/man/man3/Apache::lonsearchcat.3</target>
 <categoryname>doc</categoryname>
@@ -2496,6 +2577,34 @@ access handler for file transfers
 <status>works/unverified</status>
 </file>
 <file>
+<source>loncom/auth/lontokacc.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lontokacc.pm</target>
+<categoryname>handler</categoryname>
+<description>
+handler for inter-server transfer of token accessed files, includes
+cleanup handler to remove file when successfully done
+</description>
+<status>works/unverified</status>
+</file>
+<file>
+<source>loncom/auth/lonuploadedacc.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lonuploadedacc.pm</target>
+<categoryname>handler</categoryname>
+<description>
+access handler for user uploaded files
+</description>
+<status>works/unverified</status>
+</file>
+<file>
+<source>loncom/lontrans.pm</source>
+<target dist='default'>home/httpd/lib/perl/Apache/lontrans.pm</target>
+<categoryname>handler</categoryname>
+<description>
+URI to filename translation
+</description>
+<status>works/unverified</status>
+</file>
+<file>
 <source>doc/man/Apache__lonracc.3</source>
 <target dist='default'>usr/man/man3/Apache::lonracc.3</target>
 <categoryname>doc</categoryname>
@@ -3337,9 +3446,11 @@ Define unit prefixing and conversion for
 8.gif;
 9.gif;
 a.gif;
+anno.gif;
 anot.gif;
 b.gif;
 back.gif;
+bchat.gif;
 bkm.gif;
 brws.gif;
 c.gif;
@@ -3354,6 +3465,7 @@ cprv.gif;
 cstr.gif;
 d.gif;
 dempty.gif;
+docs.gif;
 e.gif;
 egrd.gif;
 empty.gif;
@@ -3607,7 +3719,7 @@ javascript for handling client-side inte
 </file>
 <file>
 <source>loncom/build/check-rpms</source>
-<target dist='default'>usr/local/bin/check-rpms</target>
+<target dist='default'>usr/local/loncapa/bin/check-rpms</target>
 <categoryname>root script</categoryname>
 <description>
 compare installed rpms with up-to-date distribution
@@ -3714,7 +3826,7 @@ symbolic links to /etc/rc.d/init.d/lonco
 </link>
 <file>
 <source>loncom/atalk/config</source>
-<target dist='default'>etc/atalk/config</target>
+<target dist='default'>usr/local/loncapa/doc/conf_examples/config</target>
 <categoryname>conf</categoryname>
 <description>
 configuration file to make LON-CAPA server file space accessible to